BtaINT0131697 @ bosTau6
Intron Retention
Gene
ENSBTAG00000024822 | SETX
Description
senataxin [Source:HGNC Symbol;Acc:HGNC:445]
Coordinates
chr11:102380930-102381723:-
Coord C1 exon
chr11:102381625-102381723
Coord A exon
chr11:102381018-102381624
Coord C2 exon
chr11:102380930-102381017
Length
607 bp
Sequences
Splice sites
5' ss Seq
TGGGTGGGT
5' ss Score
3.82
3' ss Seq
CTTCTTCTTCTATTGCTTAGATT
3' ss Score
7.56
Exon sequences
Seq C1 exon
GGCAGCAGAAGTCGATACCGTGGATGCCTTCCAGGGGCGTCAGAAAGACTGTGTTATTGTTACATGCGTCAGAGCAAATGCCACACAAGGCTCAATTGG
Seq A exon
GTGGGTAACTGTCATCCTTGAGTTTTTGCTTTGTTTATAATCCAGAAGTAGGTCTATTTTTAATCACTCTTAAGAGAGTACCATCATTTGCTCAATTATATAAAAAATTACATAACGTCATGAAGTTTTTTTTTAAGTTATGTAGTTGGTCCACTGTTAGGTCTGCTTTTCTTGGTTCCTTGTGTCCATGTCACAGAGTGAATCTTTTTTCACTTGAGAAAATTAGATGATTGAATCCAATATATTTTGCAGGGGCATGTTCCTCTCCACAGTATGTGTCATAATTGATCTACTGTCATATTTTTAGGATGTTTTAAGACTTAAAAATCACAGCATTAAAATTTCTAATATCTAAGTCACGATAGGAAATAGGTGCGTCACTTTGAAGGAAAGCTCCAGACATCGTTTGTTTATTGTTTTTGATGAGAATTGCCCTATGCCAGGTCCCCTGTGTTGAGAGAAGGGGTGCAAAAGCATTGTGATTTTAAAGCAGAAGGAGCCAAGAAAAGCTGTCAGAAATATCGCCTGTGTCTCACATACACTGATACATGGCCTAGTCATTCCATACAAAGAAGTAACTTTTTTTTCTTCTTCTTCTATTGCTTAG
Seq C2 exon
ATTTCTGGCAAGTTTGCAGAGATTGAATGTCACCATCACACGAGCCAAGTACAGCCTCTTCATCCTCGGACACTTGAGAACCCTAGTG
VastDB Features
Vast-tools module Information
Secondary ID
ENSBTAG00000024822:ENSBTAT00000042924:23
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.000
Domain overlap (PFAM):
C1:
PF130871=AAA_12=FE(16.3=100)
A:
NA
C2:
PF130871=AAA_12=PD(12.9=86.7)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GCAGCAGAAGTCGATACCGTG
R:
AGGGTTCTCAAGTGTCCGAGG
Band lengths:
182-789
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]
SPECIAL DATASETS
- Pre-implantation embryo development